Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 330 of 438
Found at i:103472308 original size:3 final size:3
Alignment explanation
Indices: 103472300--103472328 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
103472290 TGTTTTCTAG
103472300 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
103472329 CTTTCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:103472344 original size:21 final size:21
Alignment explanation
Indices: 103472320--103472361 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
103472310 CTTCTTCTTC
103472320 TTCTTCTTCCTTTCTTTTTTT
1 TTCTTCTTCCTTTCTTTTTTT
* **
103472341 TTCTTTTTTTTTTCTTTTTTT
1 TTCTTCTTCCTTTCTTTTTTT
103472362 GCGGGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TTCTTCTTCCTTTCTTTTTTT
Found at i:103472345 original size:10 final size:10
Alignment explanation
Indices: 103472330--103472361 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
103472320 TTCTTCTTCC
103472330 TTTCTTTTTT
1 TTTCTTTTTT
103472340 TTTCTTTTTTT
1 TTTC-TTTTTT
103472351 TTTCTTTTTT
1 TTTCTTTTTT
103472361 T
1 T
103472362 GCGGGTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:103472348 original size:11 final size:11
Alignment explanation
Indices: 103472330--103472361 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
103472320 TTCTTCTTCC
103472330 TTTC-TTTTTT
1 TTTCTTTTTTT
103472340 TTTCTTTTTTT
1 TTTCTTTTTTT
103472351 TTTCTTTTTTT
1 TTTCTTTTTTT
103472362 GCGGGTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:103475533 original size:11 final size:11
Alignment explanation
Indices: 103475517--103475545 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
103475507 TAGTGAAGAG
103475517 TTCTTTTTTTT
1 TTCTTTTTTTT
103475528 TTCTTTTTTTT
1 TTCTTTTTTTT
103475539 TT-TTTTT
1 TTCTTTTT
103475546 CTCTTACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:103485256 original size:49 final size:49
Alignment explanation
Indices: 103485190--103485305 Score: 137
Period size: 49 Copynumber: 2.3 Consensus size: 49
103485180 TGCCATGTAG
*
103485190 CAGACATGGTCTTACACTAGCTTTCATATAGCGAG-GCCGATG-CTATGTCC
1 CAGACA-GGTCTTACACTAGCTCTCATATAGCG-GTGCCGATGTC-ATGTCC
* * * *
103485240 CAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGTCATGTCC
1 CAGACAGGTCTTACACTAGCTCTCATATAGCGGTGCCGATGTCATGTCC
*
103485289 CAAACAGGTCTTACACT
1 CAGACAGGTCTTACACT
103485306 GACACACGAC
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 1 0.02
49 50 0.86
50 7 0.12
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
CAGACAGGTCTTACACTAGCTCTCATATAGCGGTGCCGATGTCATGTCC
Found at i:103490507 original size:106 final size:106
Alignment explanation
Indices: 103490317--103490923 Score: 668
Period size: 106 Copynumber: 5.7 Consensus size: 106
103490307 TAAGAAACTA
* * * * * * * * * * *
103490317 TTTAAGAGTTGTGTTCTTAAAGCAGCGAATTCAAATAAACTTAGGTTGTGATTTTAAATCAGCTA
1 TTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTGCGATATTAAATTAACTA
* *
103490382 ACCTTTATCACATCAGCTGTGAATGAAGGTCAGTGAGCTAT
66 ACCTTTATAATATCAGCTGTGAATGAAGGTCAGTGAGCTAT
* * * *
103490423 TTTAGGAGTTGCAATCTCAAATCAGCTAACTCAAAGAAACTTAGGTTGCGATCTTAAATCAACTA
1 TTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTGCGATATTAAATTAACTA
*
103490488 ACCTTTATAATATCAGCTGTG-A-GCATAGGTCATTGAGCTAT
66 ACCTTTATAATATCAGCTGTGAATG-A-AGGTCAGTGAGCTAT
* * * * * *
103490529 TTTAAGAGTTACGATCTTAAATCAGCTAACTTAAAGAAGCTTAGGTTGCGATATCAAATTAGCTA
1 TTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTGCGATATTAAATTAACTA
* * * * * *
103490594 ACTTTTATAATATCAGCTGTGAATGTAGGTTAGAGAGATGT
66 ACCTTTATAATATCAGCTGTGAATGAAGGTCAGTGAGCTAT
* * * * * * *
103490635 TTTAGGAGCTGCAATCTCAAATCAGCTAACTCAAAGAAACTTAGGTTGTGGTCTTAAATAAACTA
1 TTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTGCGATATTAAATTAACTA
* * * * * *
103490700 ACCTTTATAATATCAACTATAAATGTAGGTTATTGAGCTAT
66 ACCTTTATAATATCAGCTGTGAATGAAGGTCAGTGAGCTAT
* *
103490741 TTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACATAGGTTGTGATATTAAATTAACTA
1 TTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTGCGATATTAAATTAACTA
*
103490806 ACCTTTATAATATCAGCTGTGAAT-ATAGGTCA-TCAAG-T-T
66 ACCTTTATAATATCAGCTGTGAATGA-AGGTCAGT-GAGCTAT
* * * *
103490845 GTTTAGGAGTTGCGATCTTAAATCAACTAACTCAAAGAAACTTAGATTGCAATATTAAATTAGCT
1 -TTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTGCGATATTAAATTAACT
*
103490910 AACCTTTATCATAT
65 AACCTTTATAATAT
103490924 TATCACTTGT
Statistics
Matches: 421, Mismatches: 73, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
104 2 0.00
105 75 0.18
106 342 0.81
107 1 0.00
108 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (106 bp):
TTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTGCGATATTAAATTAACTA
ACCTTTATAATATCAGCTGTGAATGAAGGTCAGTGAGCTAT
Found at i:103490692 original size:212 final size:212
Alignment explanation
Indices: 103490317--103490923 Score: 759
Period size: 212 Copynumber: 2.9 Consensus size: 212
103490307 TAAGAAACTA
** * * * * * * *
103490317 TTTAAGAGTTGTGTTCTTAAAGCAGCGAATTCAAATAAACTTAGGTTGTGATTTTAAATCAGCTA
1 TTTAAGAGTTACGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTGTGATATTAAATTAGCTA
* * * * * *
103490382 ACCTTTATCACATCAGCTGTGAATGAAGGTCAGTGAGCTATTTTAGGAGTTGCAATCTCAAATCA
66 ACCTTTATAATATCAGCTGTGAATGTAGGTCAGAGAGATGTTTTAGGAGTTGCAATCTCAAATCA
* * * * *
103490447 GCTAACTCAAAGAAACTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATATCAGCTGTGAGC
131 GCTAACTCAAAGAAACTTAGGTTGCGATCTTAAATAAACTAACCTTTATAATATCAACTATAAAC
103490512 ATAGGTCATTGAGCTAT
196 ATAGGTCATTGAGCTAT
* * * *
103490529 TTTAAGAGTTACGATCTTAAATCAGCTAACTTAAAGAAGCTTAGGTTGCGATATCAAATTAGCTA
1 TTTAAGAGTTACGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTGTGATATTAAATTAGCTA
* * *
103490594 ACTTTTATAATATCAGCTGTGAATGTAGGTTAGAGAGATGTTTTAGGAGCTGCAATCTCAAATCA
66 ACCTTTATAATATCAGCTGTGAATGTAGGTCAGAGAGATGTTTTAGGAGTTGCAATCTCAAATCA
* * *
103490659 GCTAACTCAAAGAAACTTAGGTTGTGGTCTTAAATAAACTAACCTTTATAATATCAACTATAAAT
131 GCTAACTCAAAGAAACTTAGGTTGCGATCTTAAATAAACTAACCTTTATAATATCAACTATAAAC
* *
103490724 GTAGGTTATTGAGCTAT
196 ATAGGTCATTGAGCTAT
* * * *
103490741 TTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACATAGGTTGTGATATTAAATTAACTA
1 TTTAAGAGTTACGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTGTGATATTAAATTAGCTA
* * * * *
103490806 ACCTTTATAATATCAGCTGTGAATATAGGTCATCA-AGTTG-TTTAGGAGTTGCGATCTTAAATC
66 ACCTTTATAATATCAGCTGTGAATGTAGGTCA-GAGAGATGTTTTAGGAGTTGCAATCTCAAATC
* * * * * * *
103490869 AACTAACTCAAAGAAACTTAGATTGCAATATTAAATTAGCTAACCTTTATCATAT
130 AGCTAACTCAAAGAAACTTAGGTTGCGATCTTAAATAAACTAACCTTTATAATAT
103490924 TATCACTTGT
Statistics
Matches: 337, Mismatches: 57, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
211 66 0.20
212 270 0.80
213 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (212 bp):
TTTAAGAGTTACGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTGTGATATTAAATTAGCTA
ACCTTTATAATATCAGCTGTGAATGTAGGTCAGAGAGATGTTTTAGGAGTTGCAATCTCAAATCA
GCTAACTCAAAGAAACTTAGGTTGCGATCTTAAATAAACTAACCTTTATAATATCAACTATAAAC
ATAGGTCATTGAGCTAT
Found at i:103492981 original size:40 final size:39
Alignment explanation
Indices: 103492821--103492983 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
103492811 TGTGTATGAA
*
103492821 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
103492860 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
103492899 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
103492938 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
103492978 TGTGCG
1 TGTGCG
103492984 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:103492999 original size:40 final size:39
Alignment explanation
Indices: 103492821--103493014 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
103492811 TGTGTATGAA
* *
103492821 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
103492860 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
103492899 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
103492938 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
103492978 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
103493015 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:103496054 original size:33 final size:33
Alignment explanation
Indices: 103496012--103496080 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
103496002 CAACAAAGTG
103496012 TGTAAGAAAAGTCCCCTAGTATTTCGAGGTTCT
1 TGTAAGAAAAGTCCCCTAGTATTTCGAGGTTCT
103496045 TGTAAGAAAAGTCCCCTAGTATTTCGAGGTTCT
1 TGTAAGAAAAGTCCCCTAGTATTTCGAGGTTCT
103496078 TGT
1 TGT
103496081 TTTCCGGCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (33 bp):
TGTAAGAAAAGTCCCCTAGTATTTCGAGGTTCT
Found at i:103500825 original size:38 final size:38
Alignment explanation
Indices: 103500772--103500857 Score: 147
Period size: 38 Copynumber: 2.3 Consensus size: 38
103500762 GATGTGTATG
*
103500772 AATGTGC-AATTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
103500809 AATGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
103500847 AATGGTGCGAG
1 AAT-GTGCGAG
103500858 CTGTAACACC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
37 7 0.15
38 32 0.70
39 7 0.15
ACGTcount: A:0.26, C:0.20, G:0.34, T:0.21
Consensus pattern (38 bp):
AATGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
Found at i:103509179 original size:40 final size:40
Alignment explanation
Indices: 103509134--103509223 Score: 128
Period size: 40 Copynumber: 2.2 Consensus size: 40
103509124 CGGAATATAA
*
103509134 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAAC
* * *
103509174 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAAC
103509214 CCGGATATAA
1 CCGGATATAA
103509224 TTTCCAGCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 42 0.98
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:103511026 original size:40 final size:40
Alignment explanation
Indices: 103510948--103511064 Score: 137
Period size: 40 Copynumber: 3.0 Consensus size: 40
103510938 GGGTGTCACA
* *
103510948 CGAGCTATGATATCCGGGCTAAG-CCCGAAGGCAATTGTG
1 CGAGTTATGATATCCGGGCTAAGTCCCGAAGGCATTTGTG
* *
103510987 CGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 CGAGTTATGATATCCGGGCTAAGTCCCGAAGGCATTTGTG
* ** * * *
103511027 CGGGTTACCATAACCGGGCTATGTCCCGAAGGCGTTTG
1 CGAGTTATGATATCCGGGCTAAGTCCCGAAGGCATTTG
103511065 AACGAGTAGC
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 20 0.31
40 45 0.69
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (40 bp):
CGAGTTATGATATCCGGGCTAAGTCCCGAAGGCATTTGTG
Found at i:103525502 original size:40 final size:40
Alignment explanation
Indices: 103525409--103525635 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
103525399 TTCTAACACG
* * * * * *
103525409 AGCCTACGGGTCTTT-AACCCGGATTCCATTCTAGTACGA-
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCA-TAT
*
103525448 AGCCTGCGGGTCTTTAAACCTGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
* * * *
103525488 AGCTTGCGGGTCTTTAAACCCGAATACAACTCTAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
*
103525528 AGCCTGCGGGTCTTTAAACCCGGATACAATTCTAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
* *
103525568 AGCCTGCGGGTCTTTAAACCCGGATACCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCA-TAT
* *
103525608 AGCCTGTGGGTCTTTAAGCCCGGATACA
1 AGCCTGCGGGTCTTTAAACCCGGATACA
103525636 CACATCAAAT
Statistics
Matches: 164, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 15 0.09
40 148 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
Found at i:103525593 original size:120 final size:119
Alignment explanation
Indices: 103525409--103525635 Score: 305
Period size: 120 Copynumber: 1.9 Consensus size: 119
103525399 TTCTAACACG
* * * *
103525409 AGCCTACGGGTCTTTAACCCGGATTCCATTCTAGTACGAAGCCTGCGGGTCTTTAAACCTGGATA
1 AGCCTACGGGTCTTTAACCCGGATACAATTCTAGCACGAAGCCTGCGGGTCTTTAAACCCGGATA
* *
103525474 CAATTCCAGCA-TATAGCTTGCGGGTCTTTAAACCCGAATACAACTCTAGCATAT
66 CAATTCCAGCACGA-AGCCTGCGGGTCTTTAAACCCGAATACAACTCTAGCATAT
* *
103525528 AGCCTGCGGGTCTTTAAACCCGGATACAATTCTAGCA-TATAGCCTGCGGGTCTTTAAACCCGGA
1 AGCCTACGGGTCTTT-AACCCGGATACAATTCTAGCACGA-AGCCTGCGGGTCTTTAAACCCGGA
* * * *
103525592 TACCATTCCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACA
64 TACAATTCCAGCACGAAGCCTGCGGGTCTTTAAACCCGAATACA
103525636 CACATCAAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
119 15 0.16
120 77 0.83
121 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
AGCCTACGGGTCTTTAACCCGGATACAATTCTAGCACGAAGCCTGCGGGTCTTTAAACCCGGATA
CAATTCCAGCACGAAGCCTGCGGGTCTTTAAACCCGAATACAACTCTAGCATAT
Found at i:103533849 original size:54 final size:54
Alignment explanation
Indices: 103533764--103533896 Score: 239
Period size: 54 Copynumber: 2.5 Consensus size: 54
103533754 TCTTATGGTG
* * *
103533764 GGATTATCAGTCTAGGCTAAATCCCCGATTTTATGAACTCATAAGGTGATGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGGTGATGTCA
103533818 GGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGGTGATGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGGTGATGTCA
103533872 GGATTACCAGTCCAGGCTAAATCCC
1 GGATTACCAGTCCAGGCTAAATCCC
103533897 TTATAACGAC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGGTGATGTCA
Found at i:103556280 original size:21 final size:22
Alignment explanation
Indices: 103556254--103556294 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
103556244 CTCTTAACAC
103556254 AAGGGC-ACACGCCCATGTGGG
1 AAGGGCAACACGCCCATGTGGG
*
103556275 AAGGGCAACACGCCCGTGTG
1 AAGGGCAACACGCCCATGTG
103556295 ACAATTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.24, C:0.29, G:0.37, T:0.10
Consensus pattern (22 bp):
AAGGGCAACACGCCCATGTGGG
Found at i:103561073 original size:55 final size:54
Alignment explanation
Indices: 103560963--103561216 Score: 234
Period size: 55 Copynumber: 4.8 Consensus size: 54
103560953 ATTAGGGTTT
* * * *
103560963 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTGAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAAAGTTTATAAGGC
* * * * *
103561018 AAGGATACCATGTAAGTCCATGTCAAGACATGTCATTGATAAATTATTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAAGT-TTATAAGGC
* * * *
103561073 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGT-GAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAAGTTTATAAGGC
* * *
103561126 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGT-AAGTTT-TAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAAGTTTATAAGGC
** * * * *
103561175 AAGGATACCACATAAGACCATGACAAGTCATGGAAATGGTAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAA
103561217 GGTACCCATG
Statistics
Matches: 164, Mismatches: 31, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
49 34 0.21
50 1 0.01
52 7 0.04
53 42 0.26
54 10 0.06
55 66 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAAGTTTATAAGGC
Found at i:103561207 original size:49 final size:51
Alignment explanation
Indices: 103561085--103561217 Score: 135
Period size: 49 Copynumber: 2.6 Consensus size: 51
103561075 AGGTCCCATG
* * * * **
103561085 TAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATG
1 TAAGACCATGACAAGACATGGCAATGGTAAGTTCATAA-G-AAGGATACCACA
* * *
103561138 TAAGACCATGTCGAGACATGGCAATGGTAAGTT-TTAA-AAGGATACCACA
1 TAAGACCATGACAAGACATGGCAATGGTAAGTTCATAAGAAGGATACCACA
* *
103561187 TAAGACCATGACAAGTCATGGAAATGGTAAG
1 TAAGACCATGACAAGACATGGCAATGGTAAG
103561218 GTACCCATGT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 37 0.54
52 3 0.04
53 28 0.41
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.21
Consensus pattern (51 bp):
TAAGACCATGACAAGACATGGCAATGGTAAGTTCATAAGAAGGATACCACA
Found at i:103561430 original size:16 final size:16
Alignment explanation
Indices: 103561409--103561439 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
103561399 ATAAATTTGA
103561409 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
103561425 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
103561440 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:103566758 original size:43 final size:43
Alignment explanation
Indices: 103566697--103566818 Score: 178
Period size: 43 Copynumber: 2.9 Consensus size: 43
103566687 GAATATTCGG
*
103566697 ATGATAACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
103566740 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
103566783 AT-AT--CTGGGCTAAGTCCCGAAGGCAGTTGAGCGAGT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
103566819 CGCTATATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
40 28 0.38
42 2 0.03
43 43 0.59
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:103566804 original size:40 final size:39
Alignment explanation
Indices: 103566705--103566844 Score: 163
Period size: 43 Copynumber: 3.5 Consensus size: 39
103566695 GGATGATAAC
*
103566705 CGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATGAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
*
103566745 AACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 ---CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * **
103566787 CTGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTCGCTATAT
1 C-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
103566827 CCGGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
103566845 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 16 0.18
40 34 0.39
42 2 0.02
43 35 0.40
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:103566844 original size:39 final size:40
Alignment explanation
Indices: 103566707--103566844 Score: 127
Period size: 40 Copynumber: 3.4 Consensus size: 40
103566697 ATGATAACCG
* * * *
103566707 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATGATAAC-C
1 GGCTAAGTCCCGAAGGCAGTTGAGCGAGTCACTAT-AT--CTC
* * * * *
103566749 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCTG
1 -GGCTAAGTCCCGAAGGCAGTTGAGCGAGTCACTATATCTC
*
103566790 GGCTAAGTCCCGAAGGCAGTTGAGCGAGTCGCTATATC-C
1 GGCTAAGTCCCGAAGGCAGTTGAGCGAGTCACTATATCTC
*
103566829 GGCTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
103566845 TACTTGGTTT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 15 0.18
40 34 0.40
42 2 0.02
43 33 0.39
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCAGTTGAGCGAGTCACTATATCTC
Found at i:103568456 original size:132 final size:132
Alignment explanation
Indices: 103568219--103568484 Score: 523
Period size: 132 Copynumber: 2.0 Consensus size: 132
103568209 ATGTTGCACG
103568219 ACCGTGTCAATCTTCGTTCACTTCTCCCACGCCCGTGTATGCAGGCACACACCCGTGTTATTTTG
1 ACCGTGTCAATCTTCGTTCACTTCTCCCACGCCCGTGTATGCAGGCACACACCCGTGTTATTTTG
103568284 ATAGACTCAACCACAGTAGGTGGGCACAGTCGTGTCGCTCATCCATGTTAATTTGGCAGGATTGT
66 ATAGACTCAACCACAGTAGGTGGGCACAGTCGTGTCGCTCATCCATGTTAATTTGGCAGGATTGT
103568349 CC
131 CC
*
103568351 ACCGTGTCAATCTTCGTTCACTTCTCCCACGCCCGTGTATGCAGGCACACACTCGTGTTATTTTG
1 ACCGTGTCAATCTTCGTTCACTTCTCCCACGCCCGTGTATGCAGGCACACACCCGTGTTATTTTG
103568416 ATAGACTCAACCACAGTAGGTGGGCACAGTCGTGTCGCTCATCCATGTTAATTTGGCAGGATTGT
66 ATAGACTCAACCACAGTAGGTGGGCACAGTCGTGTCGCTCATCCATGTTAATTTGGCAGGATTGT
103568481 CC
131 CC
103568483 AC
1 AC
103568485 GGCCATGACG
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (132 bp):
ACCGTGTCAATCTTCGTTCACTTCTCCCACGCCCGTGTATGCAGGCACACACCCGTGTTATTTTG
ATAGACTCAACCACAGTAGGTGGGCACAGTCGTGTCGCTCATCCATGTTAATTTGGCAGGATTGT
CC
Found at i:103578365 original size:40 final size:40
Alignment explanation
Indices: 103578303--103578520 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
103578293 AAGCCAAGTA
* * * *
103578303 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
103578342 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
103578382 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
103578422 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
103578462 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
103578502 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
103578521 TTATCATCCA
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 13 0.08
40 153 0.92
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:103581104 original size:16 final size:16
Alignment explanation
Indices: 103581083--103581122 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
103581073 CCTTTTAAGC
103581083 GGGCACAATTTCTATT
1 GGGCACAATTTCTATT
103581099 GGGCACAATTTCTATT
1 GGGCACAATTTCTATT
103581115 GGGCACAA
1 GGGCACAA
103581123 CTCTTCCCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (16 bp):
GGGCACAATTTCTATT
Found at i:103583057 original size:24 final size:24
Alignment explanation
Indices: 103583025--103583073 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
103583015 GACGGCTATG
103583025 GATAACTGAGTTAGTTTATTTTAA
1 GATAACTGAGTTAGTTTATTTTAA
103583049 GATAACTGAGTTAGTTTATTTTAA
1 GATAACTGAGTTAGTTTATTTTAA
103583073 G
1 G
103583074 TTTTAGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (24 bp):
GATAACTGAGTTAGTTTATTTTAA
Found at i:103588209 original size:36 final size:35
Alignment explanation
Indices: 103588121--103588210 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 35
103588111 TGTAACACAT
* *
103588121 TTTTGCGCCCAACGCCAGTCGGATAATCGATGATAG
1 TTTTGC-CCCAACGCTAGTCGAATAATCGATGATAG
* * *
103588157 ATATG-CCCAACACTAGTCGAACTAATCGATGAT-G
1 TTTTGCCCCAACGCTAGTCGAA-TAATCGATGATAG
103588191 TTTTGCCCCCAACGCTAGTC
1 TTTTG-CCCCAACGCTAGTC
103588211 AGGTAAACAG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
34 17 0.40
35 11 0.26
36 15 0.35
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (35 bp):
TTTTGCCCCAACGCTAGTCGAATAATCGATGATAG
Found at i:103588627 original size:33 final size:33
Alignment explanation
Indices: 103588585--103588650 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
103588575 GAGTTCGAGT
103588585 TCAAAGACTATGAACTTAATGAAAGTTACATTA
1 TCAAAGACTATGAACTTAATGAAAGTTACATTA
103588618 TCAAAGACTATGAACTTAATGAAAGTTACATTA
1 TCAAAGACTATGAACTTAATGAAAGTTACATTA
103588651 CTTTTGATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (33 bp):
TCAAAGACTATGAACTTAATGAAAGTTACATTA
Found at i:103590799 original size:16 final size:16
Alignment explanation
Indices: 103590778--103590809 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
103590768 GAATTTGCCC
103590778 TTAGGCAATAAGCTAA
1 TTAGGCAATAAGCTAA
*
103590794 TTAGGCAATGAGCTAA
1 TTAGGCAATAAGCTAA
103590810 ATCTTCCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (16 bp):
TTAGGCAATAAGCTAA
Found at i:103593081 original size:50 final size:48
Alignment explanation
Indices: 103592962--103593138 Score: 171
Period size: 48 Copynumber: 3.7 Consensus size: 48
103592952 CACTGACTAT
* * * * * *
103592962 CGATGCCATGTCTCAGACATGATCTTACACTGGCTCATCCATTAAGT--
1 CGATACCATGTCCCAGACATGGTCTTACACTGGCACCTCCA-TACGTGC
* * * *
103593009 CAATACCATGTCCCAGACATGGTCTTACACTTGC-TCTCACACCTCCGTGC
1 CGATACCATGTCCCAGACATGGTCTTACACTGGCACCTC-CA--TACGTGC
* *
103593059 CGATACCATGTCCCAGATATGGTCTTACACTGGCACCTCTATACGTGC
1 CGATACCATGTCCCAGACATGGTCTTACACTGGCACCTCCATACGTGC
* *
103593107 CGATGCCATGTCCTAGACATGGTCTTACACTG
1 CGATACCATGTCCCAGACATGGTCTTACACTG
103593139 ACACATCTTG
Statistics
Matches: 106, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
46 2 0.02
47 31 0.29
48 38 0.36
50 32 0.30
51 3 0.03
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.28
Consensus pattern (48 bp):
CGATACCATGTCCCAGACATGGTCTTACACTGGCACCTCCATACGTGC
Found at i:103593129 original size:48 final size:47
Alignment explanation
Indices: 103592962--103593227 Score: 158
Period size: 48 Copynumber: 5.7 Consensus size: 47
103592952 CACTGACTAT
* * * * *
103592962 CGATGCCATGTCTCAGACATGATCTTACACTGGCTCATCCATTAAGT--
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTA-T-AGTGC
* * * * * *
103593009 CAATACCATGTCCCAGACATGGTCTTACACTTGC-TCTCACACCTCCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTC-TA--T-AGTGC
* *
103593059 CGATACCATGTCCCAGATATGGTCTTACACTGGCACCTCTATACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATA-GTGC
* * * *
103593107 CGATGCCATGTCCTAGACATGGTCTTACACTGACACATCT-T-GTAAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATAGT-GC
* * * *
103593153 CGACG-CATGTCCCAGGCAT-GTCTTACACTGGCTTA-CACTA-AGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC--ACCTCTATAG-TGC
*
103593199 CGATG-CATGTCCTAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
103593228 AGCTCTTGTC
Statistics
Matches: 174, Mismatches: 33, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
44 12 0.07
45 16 0.09
46 36 0.21
47 32 0.18
48 43 0.25
50 32 0.18
51 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATAGTGC
Found at i:103593219 original size:46 final size:46
Alignment explanation
Indices: 103593015--103593319 Score: 144
Period size: 46 Copynumber: 6.5 Consensus size: 46
103593005 AAGTCAATAC
* * ** * *
103593015 CATGTCCCAGACATGGTCTTACACTTGCTCTCACACCTCCGTGCCGATAC
1 CATGTCCTAGACAT-GTCTTACACTGGCTCT-ACA-CTAAGAGCCGAT-G
* * * * *
103593065 CATGTCCCAGATATGGTCTTACACTGGCACCT-CTA-TACGTGCCGATG
1 CATGTCCTAGACAT-GTCTTACACTGGC-TCTAC-ACTAAGAGCCGATG
* * * *
103593112 CCATGTCCTAGACATGGTCTTACACT-G-AC-ACATCT-TGTAACCGACG
1 -CATGTCCTAGACAT-GTCTTACACTGGCTCTACA-CTAAG-AGCCGATG
* *
103593158 CATGTCCCAGGCATGTCTTACACTGGCT-TACACTAAGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTGGCTCTACACTAAGA-GCCGATG
* *** * **
103593204 CATGTCCTAGACATGTCTTACACTAGCTCTTGTCTCAA-AG-CTAAC
1 CATGTCCTAGACATGTCTTACACTGGCTCTACACT-AAGAGCCGATG
* * * *
103593249 CATGTCTTAGACATGGTCTTACACTGGCTCTTATAATATG-GCCGATG
1 CATGTCCTAGACAT-GTCTTACACTGGCTC-TACACTAAGAGCCGATG
*
103593296 CATGTCCCAGACATGTCTTACACT
1 CATGTCCTAGACATGTCTTACACT
103593320 AGCACACAAA
Statistics
Matches: 198, Mismatches: 39, Indels: 40
0.71 0.14 0.14
Matches are distributed among these distances:
44 11 0.06
45 34 0.17
46 67 0.34
47 21 0.11
48 35 0.18
49 1 0.01
50 27 0.14
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCTAGACATGTCTTACACTGGCTCTACACTAAGAGCCGATG
Found at i:103600970 original size:45 final size:46
Alignment explanation
Indices: 103600902--103601018 Score: 150
Period size: 47 Copynumber: 2.5 Consensus size: 46
103600892 TCTAATATTG
* *
103600902 CACATTTC-TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTA
1 CACA-TTCATCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTA
*
103600948 CACATAT-ATCACATTGGCCATTCGGCCTTATCACATATACACACTTT
1 CACAT-TCATCACATTGGCCATTCGGCCTTATCACATATA-ACACTTA
103600995 CACATTCATCACATTGGCCATTCG
1 CACATTCATCACATTGGCCATTCG
103601019 ATCTTAAGCT
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
45 26 0.41
46 10 0.16
47 27 0.43
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (46 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACATATAACACTTA
Found at i:103603376 original size:4 final size:4
Alignment explanation
Indices: 103603367--103603391 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
103603357 ATTTTTTCCT
103603367 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
103603392 GTCATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:103603617 original size:22 final size:20
Alignment explanation
Indices: 103603577--103603617 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
103603567 AGTCCTATTA
*
103603577 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
103603597 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
103603618 TTCACAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:103604588 original size:24 final size:24
Alignment explanation
Indices: 103604560--103604607 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
103604550 GAACTTCAAA
103604560 GATAGCTTCAAGGTTACGAGTTCC
1 GATAGCTTCAAGGTTACGAGTTCC
103604584 GATAGCTTCAAGGTTACGAGTTCC
1 GATAGCTTCAAGGTTACGAGTTCC
103604608 TAACTCAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (24 bp):
GATAGCTTCAAGGTTACGAGTTCC
Found at i:103605685 original size:18 final size:18
Alignment explanation
Indices: 103605646--103605778 Score: 200
Period size: 18 Copynumber: 7.5 Consensus size: 18
103605636 AATGATATGT
103605646 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
103605663 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
103605681 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
103605698 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
103605716 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
103605733 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
103605751 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
103605770 AATCTTAGA
1 AATCTTAGA
103605779 AGATATGATT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 45 0.43
18 48 0.46
19 11 0.11
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:103605686 original size:35 final size:35
Alignment explanation
Indices: 103605637--103605778 Score: 239
Period size: 35 Copynumber: 4.0 Consensus size: 35
103605627 ATAATCTTCA
* *
103605637 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
103605673 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
103605708 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
103605743 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
103605779 AGATATGATT
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
35 84 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:103606266 original size:17 final size:17
Alignment explanation
Indices: 103606246--103606310 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
103606236 TCTAAACCAT
*
103606246 TATATTTTATATTTTTA
1 TATATATTATATTTTTA
*
103606263 TATA-ATTATTATTCTTA
1 TATATATTA-TATTTTTA
*
103606280 TAAATA-TAT-TTTTTA
1 TATATATTATATTTTTA
103606295 TTATATATTATATTTT
1 -TATATATTATATTTT
103606311 AAATTTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
15 5 0.13
16 9 0.24
17 19 0.50
18 5 0.13
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TATATATTATATTTTTA
Found at i:103606335 original size:26 final size:26
Alignment explanation
Indices: 103606287--103606336 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
103606277 TTATAAATAT
* * * *
103606287 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
103606313 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
103606337 TTATATGCTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:103611933 original size:10 final size:10
Alignment explanation
Indices: 103611918--103611945 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
103611908 TTCTATTTCA
103611918 AAAAAAAATG
1 AAAAAAAATG
103611928 AAAAAAAATG
1 AAAAAAAATG
103611938 AAAAAAAA
1 AAAAAAAA
103611946 AAAGAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:103611934 original size:12 final size:11
Alignment explanation
Indices: 103611917--103611982 Score: 62
Period size: 12 Copynumber: 5.7 Consensus size: 11
103611907 CTTCTATTTC
*
103611917 AAAAAAAAATG
1 AAAAAAAAAAG
*
103611928 -AAAAAAAATG
1 AAAAAAAAAAG
103611938 AAAAAAAAAAAG
1 -AAAAAAAAAAG
103611950 AAAAGAAAAAGAG
1 AAAA-AAAAA-AG
103611963 AAAAAAATAAAG
1 AAAAAAA-AAAG
*
103611975 AGAAAAAA
1 AAAAAAAA
103611983 GAAAAAATGG
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
10 10 0.21
11 5 0.10
12 25 0.52
13 8 0.17
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:103611945 original size:14 final size:13
Alignment explanation
Indices: 103611928--103611989 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
103611918 AAAAAAAATG
*
103611928 AAAAAAAATG-AA
1 AAAAAAAAAGAAA
103611940 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
* *
103611953 AGAAAAAGAGAAA
1 AAAAAAAAAGAAA
*
103611966 AAAATAAAGAGAAA
1 AAAA-AAAAAGAAA
103611980 AAAGAAAAAA
1 AAA-AAAAAA
103611990 TGGAGAAGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
12 9 0.21
13 16 0.38
14 16 0.38
15 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:103611945 original size:22 final size:21
Alignment explanation
Indices: 103611917--103611989 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 21
103611907 CTTCTATTTC
*
103611917 AAAAAAAAATGAAAAAAAATGA
1 AAAAAAAAAAGAAAAAAAA-GA
103611939 AAAAAAAAAAGAAAAGAAAAAGA
1 AAAAAAAAAAG-AAA-AAAAAGA
*
103611962 GAAAAAAATAAAGAGAAAAAAGA
1 -AAAAAAA-AAAGAAAAAAAAGA
103611985 AAAAA
1 AAAAA
103611990 TGGAGAAGGC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
22 15 0.33
23 12 0.27
24 14 0.31
25 4 0.09
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAAAAAGA
Found at i:103612964 original size:44 final size:43
Alignment explanation
Indices: 103612864--103613039 Score: 167
Period size: 44 Copynumber: 4.0 Consensus size: 43
103612854 AGATCAAGAT
* * ** * *
103612864 TTGGCATCCCTATATTTATAGGGAACAGATCAAAGATAGTAAA
1 TTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGA
* * * * **
103612907 TCTGACATTCCTGTGCTTATAGCGAAGCAGATTGAAGATTTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CAGATTGAAGATAGCAG-A
103612953 -TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAGA-TTGAAGATAGCAGA
**
103612995 TTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGA
103613039 T
1 T
103613040 CTAACCTTCA
Statistics
Matches: 106, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
42 2 0.02
43 15 0.14
44 76 0.72
45 12 0.11
46 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (43 bp):
TTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGA
Found at i:103613015 original size:88 final size:87
Alignment explanation
Indices: 103612865--103613025 Score: 198
Period size: 88 Copynumber: 1.8 Consensus size: 87
103612855 GATCAAGATT
* *
103612865 TGGCATCCCTATATTTATAGGGAACAGATCAAAGATAGTAAATCTGACATTCCTGTGCTTATAGC
1 TGGCATCCCTATATTTATAGGGAACAGATCAAAGATAGCAAATCTGACATCCCTGTGCTTATAGC
103612930 GAAGCAGATTGAAGATTTCAGCA
66 GAA-CAGATTGAAGATTTCAGCA
* * ** * * * *
103612953 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAG
1 TGGCATCCCTATATTTATAGGGAACAGA-TCAAAGATAGCAAATCTGACATCCCTGTGCTTATAG
*
103613017 GGAACAGAT
65 CGAACAGAT
103613026 CAAAGATAGC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
87 6 0.10
88 55 0.90
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (87 bp):
TGGCATCCCTATATTTATAGGGAACAGATCAAAGATAGCAAATCTGACATCCCTGTGCTTATAGC
GAACAGATTGAAGATTTCAGCA
Found at i:103613236 original size:119 final size:119
Alignment explanation
Indices: 103613025--103613388 Score: 575
Period size: 119 Copynumber: 3.1 Consensus size: 119
103613015 AGGGAACAGA
* * *
103613025 TCAAAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATTCAAGATTATTTGGCATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
103613090 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
*
103613144 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
*
103613209 TTGTGTTTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
** * *
103613263 TCAAATAGGGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
** * * * * *
103613328 TTGTACTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCAAATGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
*
103613382 TTAAATA
1 TCAAATA
103613389 GACTCAAGAT
Statistics
Matches: 226, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
119 226 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (119 bp):
TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
Found at i:103613576 original size:83 final size:83
Alignment explanation
Indices: 103613310--103613553 Score: 362
Period size: 83 Copynumber: 2.9 Consensus size: 83
103613300 GAAGCAGATC
* *
103613310 CAAGATGGTTTGGCATCCTTGTACTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
* *
103613375 AATGTTCTTAAATAGACT
66 AATGTTCTCAAACAGACT
* *
103613393 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTACAGATATGACTCCCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
*
103613458 AATGTTCTCAAACAAACT
66 AATGTTCTCAAACAGACT
* * * * *
103613476 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATTGAGGACATGGCAGATATAACACTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
**
103613541 AACATTCTCAAAC
66 AATGTTCTCAAAC
103613554 GGGTTCAAGT
Statistics
Matches: 145, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 145 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:103614002 original size:18 final size:18
Alignment explanation
Indices: 103613963--103614095 Score: 200
Period size: 18 Copynumber: 7.5 Consensus size: 18
103613953 AATGATATGT
103613963 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
103613980 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
103613998 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
103614015 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
103614033 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
103614050 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
103614068 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
103614087 AATCTTAGA
1 AATCTTAGA
103614096 AGATATGATT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 45 0.43
18 48 0.46
19 11 0.11
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:103614003 original size:35 final size:35
Alignment explanation
Indices: 103613954--103614095 Score: 239
Period size: 35 Copynumber: 4.0 Consensus size: 35
103613944 ATAATCTTCA
* *
103613954 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
103613990 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
103614025 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
103614060 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
103614096 AGATATGATT
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
35 84 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:103614590 original size:17 final size:17
Alignment explanation
Indices: 103614570--103614628 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
103614560 CCATTATATT
103614570 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
103614587 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
103614603 -TATA-TTTTTATTATATA
1 TTATATTTTTTA-TATA-A
103614620 TTATATTTT
1 TTATATTTT
103614629 AAATTTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 5 0.15
15 5 0.15
16 4 0.12
17 12 0.36
18 4 0.12
19 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:103614629 original size:17 final size:17
Alignment explanation
Indices: 103614562--103614629 Score: 63
Period size: 16 Copynumber: 4.1 Consensus size: 17
103614552 TTTCTAAACC
*
103614562 ATTATATTTTATATTTT
1 ATTATATATTATATTTT
103614579 -TTATATAATTATTATTCTT
1 ATTATAT-ATTA-TATT-TT
*
103614598 A-TAAATA-TAT-TTTT
1 ATTATATATTATATTTT
103614612 ATTATATATTATATTTT
1 ATTATATATTATATTTT
103614629 A
1 A
103614630 AATTTATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.07
15 7 0.17
16 10 0.24
17 10 0.24
18 5 0.12
19 6 0.15
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTATATATTATATTTT
Found at i:103614653 original size:26 final size:25
Alignment explanation
Indices: 103614606--103614654 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
103614596 TTATAAATAT
* * *
103614606 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
103614631 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
103614655 TTTATATGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:103617846 original size:22 final size:22
Alignment explanation
Indices: 103617818--103617861 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
103617808 TAATAAAATG
103617818 TGCTGATTGAGTCTTTTATTGA
1 TGCTGATTGAGTCTTTTATTGA
103617840 TGCTGATTGAGTCTTTTATTGA
1 TGCTGATTGAGTCTTTTATTGA
103617862 CCTTAGGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.09, G:0.23, T:0.50
Consensus pattern (22 bp):
TGCTGATTGAGTCTTTTATTGA
Found at i:103626425 original size:80 final size:80
Alignment explanation
Indices: 103626341--103626489 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
103626331 TATGGTAACC
* * * *
103626341 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
103626405 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
103626421 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
103626486 CCGG
66 CCGG
103626490 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:103626431 original size:40 final size:38
Alignment explanation
Indices: 103626382--103626489 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
103626372 ATCACGATTT
*
103626382 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
103626422 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
103626462 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
103626490 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:103628476 original size:40 final size:40
Alignment explanation
Indices: 103628427--103628594 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 40
103628417 TCTTCGGAAT
* * *
103628427 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
103628466 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
103628506 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
103628546 TTAGCCCGGATAGAATC-ACTAGCATAAATGCCTTC-GGTAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGT-C
103628586 TTAGCCCGG
1 TTAGCCCGG
103628595 GTATCATTCA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 99 0.93
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:103628575 original size:80 final size:80
Alignment explanation
Indices: 103628418--103628594 Score: 200
Period size: 80 Copynumber: 2.2 Consensus size: 80
103628408 AACCGAGTCT
* * * * *
103628418 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGTACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTAGAT
*
103628482 AACTTGCACAAATGC
66 AACTAGCACAAATGC
** *
103628497 CTTCGGGT-CTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGA-TAG
1 CTTC-GGTACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATTAG
* *
103628559 AATCACTAGCATAAATGC
64 -ATAACTAGCACAAATGC
103628577 CTTCGGTACTTAGCCCGG
1 CTTCGGTACTTAGCCCGG
103628595 GTATCATTCA
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
79 13 0.16
80 67 0.82
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGTACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTAGAT
AACTAGCACAAATGC
Found at i:103638290 original size:47 final size:47
Alignment explanation
Indices: 103638220--103638754 Score: 818
Period size: 47 Copynumber: 11.4 Consensus size: 47
103638210 CCCTTCGAGA
* * *
103638220 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
103638267 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
103638314 CTTATCTCATATATACATTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
103638361 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
103638408 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
103638455 CTTATCACATATACACACTTTCACATTCATCACATTGTCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
103638502 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
103638549 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
103638596 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
103638643 TTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
103638690 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
103638737 CTTATCACATATACACAC
1 CTTATCACATATATACAC
103638755 CTTGTACATC
Statistics
Matches: 443, Mismatches: 45, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 443 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:103646396 original size:39 final size:41
Alignment explanation
Indices: 103646346--103646434 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 41
103646336 TTTATGAGAA
* *
103646346 AAACGCCGC-AAAAGGTAAGCAATAGCGGCA-TTTTGTTCC
1 AAACGCCGCAAAAAGGTAAGCAATAGCGGAATTTTTGGTCC
* * *
103646385 AAACGCCGCAAAAAGTTGAGCAATAGTGGAATTTTTGGTCC
1 AAACGCCGCAAAAAGGTAAGCAATAGCGGAATTTTTGGTCC
103646426 AAACGCCGC
1 AAACGCCGC
103646435 GAATATGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 9 0.21
40 17 0.40
41 17 0.40
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (41 bp):
AAACGCCGCAAAAAGGTAAGCAATAGCGGAATTTTTGGTCC
Found at i:103646630 original size:73 final size:74
Alignment explanation
Indices: 103646491--103646649 Score: 218
Period size: 73 Copynumber: 2.1 Consensus size: 74
103646481 AATGCCTTAG
103646491 TCTTTTTCCCAAAATCGGTTCCCCCCCACGAAATCCCAAAATTTCACCTAAAATCTCTTCTTTTT
1 TCTTTTTCCCAAAATCGGTTCCCCCCCACGAAATCCCAAAA-TTCACCTAAAATCTCTTCTTTTT
103646556 TTTCCCC-TT
65 TTTCCCCATT
* *
103646565 TCTTTTTCCCAAAATCGGTT-CCCCCCTCGAAATCTCAAAA-T-ACCTAAAATCTCTTCTTCTAT
1 TCTTTTTCCCAAAATCGGTTCCCCCCCACGAAATCCCAAAATTCACCTAAAATCTCTTC-T-T-T
103646627 TTTTTCCCCATTT
63 TTTTTCCCCA-TT
*
103646640 TATTTTTCCC
1 TCTTTTTCCC
103646650 TAACCATTTC
Statistics
Matches: 77, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
70 15 0.19
71 2 0.03
72 1 0.01
73 28 0.36
74 20 0.26
75 11 0.14
ACGTcount: A:0.23, C:0.33, G:0.04, T:0.40
Consensus pattern (74 bp):
TCTTTTTCCCAAAATCGGTTCCCCCCCACGAAATCCCAAAATTCACCTAAAATCTCTTCTTTTTT
TTCCCCATT
Found at i:103646730 original size:22 final size:22
Alignment explanation
Indices: 103646705--103646766 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 22
103646695 TTTCCCCAAA
*
103646705 TCGGTAGCCCTCTGCATCTTCG
1 TCGGTAGCCCTCTGCATCTCCG
* *
103646727 TCGGCAACCCATTGCTGCATCTCCG
1 TCGGTAGCCC--T-CTGCATCTCCG
103646752 TCGGTAGCCCTCTGC
1 TCGGTAGCCCTCTGC
103646767 TGCTTCTCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 12 0.38
23 1 0.03
24 1 0.03
25 18 0.56
ACGTcount: A:0.11, C:0.39, G:0.23, T:0.27
Consensus pattern (22 bp):
TCGGTAGCCCTCTGCATCTCCG
Found at i:103646767 original size:25 final size:25
Alignment explanation
Indices: 103646705--103646775 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
103646695 TTTCCCCAAA
*
103646705 TCGGTAG-CC-CT-CTGCATCTTCG
1 TCGGTAGCCCTCTGCTGCATCTCCG
* *
103646727 TCGGCAACCCAT-TGCTGCATCTCCG
1 TCGGTAGCCC-TCTGCTGCATCTCCG
*
103646752 TCGGTAGCCCTCTGCTGCTTCTCC
1 TCGGTAGCCCTCTGCTGCATCTCC
103646776 TTGTAAGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
22 5 0.13
23 2 0.05
24 2 0.05
25 29 0.76
ACGTcount: A:0.10, C:0.39, G:0.21, T:0.30
Consensus pattern (25 bp):
TCGGTAGCCCTCTGCTGCATCTCCG
Found at i:103649850 original size:16 final size:16
Alignment explanation
Indices: 103649829--103649862 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
103649819 AAAGTGTGCA
103649829 TTCTATTAT-TATTTTG
1 TTCTATT-TGTATTTTG
103649845 TTCTATTTGTATTTTG
1 TTCTATTTGTATTTTG
103649861 TT
1 TT
103649863 AGATTTAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.71
Consensus pattern (16 bp):
TTCTATTTGTATTTTG
Found at i:103649952 original size:26 final size:22
Alignment explanation
Indices: 103649889--103649937 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
103649879 ATGATAAGTG
*
103649889 TGATATTTTGTTTGATTGTTAT
1 TGATCTTTTGTTTGATTGTTAT
103649911 TGATCTTTTGTTTGATTGTTAT
1 TGATCTTTTGTTTGATTGTTAT
103649933 TGATC
1 TGATC
103649938 AACTTTCTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.04, G:0.18, T:0.61
Consensus pattern (22 bp):
TGATCTTTTGTTTGATTGTTAT
Found at i:103655921 original size:4 final size:4
Alignment explanation
Indices: 103655912--103655951 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
103655902 TTTGTTTATC
* *
103655912 TTTA TTTA TTTA TTTA TTTA TTTT TGTTA GTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTT
103655952 TTAGTCCTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 29 0.94
5 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:103655947 original size:17 final size:16
Alignment explanation
Indices: 103655912--103655953 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
103655902 TTTGTTTATC
* *
103655912 TTTATTTATTTATTTA
1 TTTATTTTTTTAGTTA
103655928 TTTATTTTTGTTAGTTA
1 TTTATTTTT-TTAGTTA
103655945 TTTATTTTT
1 TTTATTTTT
103655954 AGTCCTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (16 bp):
TTTATTTTTTTAGTTA
Found at i:103657117 original size:56 final size:57
Alignment explanation
Indices: 103657034--103657145 Score: 156
Period size: 56 Copynumber: 2.0 Consensus size: 57
103657024 GAAATGGTGA
*
103657034 AAAATGAGAAATAGGAAACATTTGGAAATGATTATGGTTTTCTCAAAAACGAAAATT
1 AAAATGAGAAATAGGAAACATTTGGAAATGAATATGGTTTTCTCAAAAACGAAAATT
* * * *
103657091 AAAATAGAGAAAT-GGAATCA-TTGGAAATGAATGTGGTTTTCTCCAAAATGAAAAT
1 AAAAT-GAGAAATAGGAAACATTTGGAAATGAATATGGTTTTCTCAAAAACGAAAAT
103657146 GACCTGAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 31 0.63
57 11 0.22
58 7 0.14
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (57 bp):
AAAATGAGAAATAGGAAACATTTGGAAATGAATATGGTTTTCTCAAAAACGAAAATT
Found at i:103659817 original size:19 final size:20
Alignment explanation
Indices: 103659795--103659870 Score: 81
Period size: 19 Copynumber: 4.0 Consensus size: 20
103659785 ATTATAGTAG
103659795 ATTAATA-CATAATATGTTA
1 ATTAATATCATAATATGTTA
* *
103659814 ATTATTATCATTATA-G-TA
1 ATTAATATCATAATATGTTA
103659832 GATTAATA-CATAATATGTTA
1 -ATTAATATCATAATATGTTA
*
103659852 ATTATTATCAT-ATATGTTA
1 ATTAATATCATAATATGTTA
103659871 TTGTTTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
18 8 0.17
19 28 0.60
20 11 0.23
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (20 bp):
ATTAATATCATAATATGTTA
Found at i:103659836 original size:38 final size:38
Alignment explanation
Indices: 103659785--103659862 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
103659775 ATCACATACT
103659785 ATTATAGTAGATTAATACATAATATGTTAATTATTATC
1 ATTATAGTAGATTAATACATAATATGTTAATTATTATC
103659823 ATTATAGTAGATTAATACATAATATGTTAATTATTATC
1 ATTATAGTAGATTAATACATAATATGTTAATTATTATC
103659861 AT
1 AT
103659863 ATATGTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (38 bp):
ATTATAGTAGATTAATACATAATATGTTAATTATTATC
Found at i:103659978 original size:22 final size:19
Alignment explanation
Indices: 103659953--103660001 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 19
103659943 TATTATATTG
103659953 TATAATATTATTTCATATAGTA
1 TATAATATTA-TT-A-ATAGTA
103659975 TATAATA-TATTAATAGTA
1 TATAATATTATTAATAGTA
103659993 TATATATAT
1 TATA-ATAT
103660002 ACATCAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 10 0.40
19 4 0.16
20 2 0.08
21 2 0.08
22 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (19 bp):
TATAATATTATTAATAGTA
Found at i:103665107 original size:3 final size:3
Alignment explanation
Indices: 103665099--103665149 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
103665089 TTATGCAAAG
*
103665099 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
103665147 TAA
1 TAA
103665150 AAAGGAGGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:103666095 original size:3 final size:3
Alignment explanation
Indices: 103666089--103666126 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
103666079 AGTATGTAAG
* *
103666089 TAA TAA TAA TAA TAA -AA TAA TAG TAA TAA TAA TCA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
103666127 CAAATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:103666276 original size:3 final size:3
Alignment explanation
Indices: 103666270--103666305 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
103666260 AATAGAAGAC
*
103666270 AAT AAT AAT AAT -AT ATT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
103666306 TAGGAGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:103666319 original size:23 final size:23
Alignment explanation
Indices: 103666270--103666319 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
103666260 AATAGAAGAC
** *
103666270 AATAATAATAATATATTAATAAT
1 AATAATAATAATATAGGAATAAA
103666293 AATAATAATAATATAGGAGA-AAA
1 AATAATAATAATATAGGA-ATAAA
103666316 AATA
1 AATA
103666320 TTATATAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
AATAATAATAATATAGGAATAAA
Found at i:103666756 original size:43 final size:43
Alignment explanation
Indices: 103666527--103666755 Score: 289
Period size: 43 Copynumber: 5.3 Consensus size: 43
103666517 CGCTATATGC
* * *
103666527 AACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGCA
1 AACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTCTCACA
* * ** * *
103666570 AACGCCACTAAAAACCAAGAGTTTTAGTGGCACTTTTCTCGA-A
1 AACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTCTC-ACA
* * *
103666613 AACGCCGCTAAAGACCATGACCTTTTGCGGCGCTTTTCTCGCA
1 AACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTCTCACA
* *
103666656 AACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACA
1 AACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTCTCACA
* * *
103666699 AACGCCGCTAAAAATCATAACCTTTAGCGGCACTTTTCTCACA
1 AACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTCTCACA
103666742 AACGCCGCTAAAAA
1 AACGCCGCTAAAAA
103666756 TAATGATCTT
Statistics
Matches: 158, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
43 158 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
AACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTCTCACA
Found at i:103666799 original size:21 final size:21
Alignment explanation
Indices: 103666775--103666832 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
103666765 TACAAAAAAT
103666775 TATTTTATTTTAATTAAATAA
1 TATTTTATTTTAATTAAATAA
* *
103666796 TA-TTTATTTTATGTTAAATAT
1 TATTTTATTTTA-ATTAAATAA
*
103666817 TATATTATGTTTAATT
1 TATTTTAT-TTTAATT
103666833 TTTGAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 9 0.30
21 11 0.37
22 6 0.20
23 4 0.13
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
TATTTTATTTTAATTAAATAA
Found at i:103666830 original size:18 final size:18
Alignment explanation
Indices: 103666794--103666827 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
103666784 TTAATTAAAT
*
103666794 AATATTTATTTTATGTTA
1 AATATTTATATTATGTTA
103666812 AATA-TTATATTATGTT
1 AATATTTATATTATGTT
103666828 TAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (18 bp):
AATATTTATATTATGTTA
Found at i:103668153 original size:15 final size:16
Alignment explanation
Indices: 103668127--103668157 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
103668117 TGTTTCTTGC
103668127 TTTTAGATCATATATA
1 TTTTAGATCATATATA
103668143 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
103668158 AGATAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:103671314 original size:79 final size:81
Alignment explanation
Indices: 103671213--103671397 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
103671203 ACGACTCGCT
** * * *
103671213 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCCCGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
103671276 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
103671293 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
103671357 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
103671373 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
103671398 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:103671327 original size:39 final size:40
Alignment explanation
Indices: 103671213--103671397 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
103671203 ACGACTCGCT
** * * *
103671213 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCA
* * *
103671253 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* *
103671293 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* * * * *
103671332 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCA
103671373 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
103671398 CATCATTCGA
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.63
41 11 0.09
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
Found at i:103674766 original size:2 final size:2
Alignment explanation
Indices: 103674761--103674787 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
103674751 TAAATTTAAA
103674761 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
103674788 AAGTAAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:103675137 original size:21 final size:21
Alignment explanation
Indices: 103675097--103675229 Score: 81
Period size: 21 Copynumber: 6.2 Consensus size: 21
103675087 AATCATACAA
* *
103675097 CATAACCCTTAAATCCATAATC
1 CATAACCCCT-AACCCATAATC
*
103675119 CATAACCCCTAACCCATAACC
1 CATAACCCCTAACCCATAATC
* * *
103675140 CCTAACCTCTAACACC-TAAAC
1 CATAACCCCTAAC-CCATAATC
* * *
103675161 CTTAAACCCC-AACCCTTAAAC
1 CAT-AACCCCTAACCCATAATC
* ** *
103675182 CATAAACTGTAAACCATAATC
1 CATAACCCCTAACCCATAATC
* *
103675203 CATAAACCCATAATCCATAATC
1 CAT-AACCCCTAACCCATAATC
103675225 CATAA
1 CATAA
103675230 ACCTTAAAAT
Statistics
Matches: 87, Mismatches: 19, Indels: 11
0.74 0.16 0.09
Matches are distributed among these distances:
20 5 0.06
21 49 0.56
22 33 0.38
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (21 bp):
CATAACCCCTAACCCATAATC
Found at i:103675158 original size:14 final size:14
Alignment explanation
Indices: 103675118--103675146 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
103675108 AATCCATAAT
103675118 CCATAACCCCTAAC
1 CCATAACCCCTAAC
103675132 CCATAACCCCTAAC
1 CCATAACCCCTAAC
103675146 C
1 C
103675147 TCTAACACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (14 bp):
CCATAACCCCTAAC
Found at i:103675215 original size:15 final size:14
Alignment explanation
Indices: 103675177--103675229 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
103675167 CCCCAACCCT
* **
103675177 TAAACCATAAACTG
1 TAAACCATAATCCA
103675191 TAAACCATAATCCA
1 TAAACCATAATCCA
103675205 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
*
103675220 TAATCCATAA
1 TAAACCATAA
103675230 ACCTTAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 21 0.62
15 13 0.38
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:103675545 original size:24 final size:24
Alignment explanation
Indices: 103675518--103675566 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
103675508 TTAAAATAAC
*
103675518 AATTAATTTTTATATAGACTTTTA
1 AATTAATTTTTATATAAACTTTTA
103675542 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
103675566 A
1 A
103675567 TAAATATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:103676374 original size:40 final size:41
Alignment explanation
Indices: 103676183--103676392 Score: 298
Period size: 41 Copynumber: 5.1 Consensus size: 41
103676173 AGTTATATGA
*
103676183 CTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * *
103676224 CTTTTAGCGGTGTTTTACCAAAAGCGCCGCTACTACTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
103676265 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* *
103676306 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCAGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
*** *
103676347 -TTTTAGCGGCGTTTTTGGTAAAA-CGCCGCTATTGCTCTGT
1 CTTTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCTGT
*
103676387 GTTTTA
1 CTTTTA
103676393 CAATTTTTAC
Statistics
Matches: 154, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 27 0.18
41 127 0.82
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (41 bp):
CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:103676482 original size:3 final size:3
Alignment explanation
Indices: 103676465--103676639 Score: 119
Period size: 3 Copynumber: 58.3 Consensus size: 3
103676455 TATTACCATG
* *
103676465 ATA ATA ATTA A-A ATA ATA ATA ATA A-A ATA ATA AAA ATA ACA AT-
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
103676508 ATG TTT CTA ATA ATA ATAA ATA ATG GTA ATA A-A TATA TATAA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -ATA -AT-A ATA ATA
* * * * *
103676556 GTA ACA GTA ACA GTA ATA A-A ATA A-A TATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* *
103676600 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
103676640 CACTCTCCCT
Statistics
Matches: 134, Mismatches: 27, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
2 10 0.07
3 110 0.82
4 13 0.10
5 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:103677074 original size:13 final size:13
Alignment explanation
Indices: 103677010--103677077 Score: 50
Period size: 13 Copynumber: 5.0 Consensus size: 13
103677000 GGTGATAGAG
*
103677010 TTAGTGAGGTGGT
1 TTAGTGGGGTGGT
103677023 TTAGT--GGTCGGT
1 TTAGTGGGGT-GGT
*
103677035 TTAGTAGGGTGTTGGAG
1 TTAGT-GGG-G-TGG-T
*
103677052 TTAGTAGGGTGGT
1 TTAGTGGGGTGGT
103677065 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
103677078 ATTTGGGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
11 3 0.07
12 8 0.18
13 17 0.39
14 3 0.07
15 2 0.05
16 5 0.11
17 6 0.14
ACGTcount: A:0.13, C:0.01, G:0.47, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGGT
Found at i:103677207 original size:18 final size:16
Alignment explanation
Indices: 103677162--103677208 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
103677152 TTATATTCTT
103677162 TAAAATAAAAAAATTA
1 TAAAATAAAAAAATTA
*
103677178 CAAAA-AATAAAAATTTA
1 TAAAATAA-AAAAA-TTA
103677195 TAAAATAGAAAAAA
1 TAAAATA-AAAAAA
103677209 ATTCTAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 2 0.08
16 9 0.36
17 7 0.28
18 6 0.24
19 1 0.04
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (16 bp):
TAAAATAAAAAAATTA
Found at i:103692415 original size:19 final size:19
Alignment explanation
Indices: 103692391--103692428 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
103692381 TCCTATTCCT
103692391 AGTGTCAATAATGTAAGCC
1 AGTGTCAATAATGTAAGCC
103692410 AGTGTCAATAATGTAAGCC
1 AGTGTCAATAATGTAAGCC
103692429 TCTAGCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (19 bp):
AGTGTCAATAATGTAAGCC
Found at i:103695642 original size:50 final size:50
Alignment explanation
Indices: 103695584--103695721 Score: 197
Period size: 50 Copynumber: 2.8 Consensus size: 50
103695574 AATATGAGAT
* *
103695584 TCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCAATATGTGTG-A
1 TCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCAATATGTGTGAA
* **
103695633 TCCCATGTAAGACCATGTCTGGGATATGACATTGGCATTGATATGTGTGAA
1 T-CCATGTAAGACCATGTCTGGGATATGGCATTGGCATCAATATGTGTGAA
* *
103695684 TCCATGTAAAACCATATCTGGGATATGGCATTGGCATC
1 TCCATGTAAGACCATGTCTGGGATATGGCATTGGCATC
103695722 TTACTATGTG
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
49 1 0.01
50 75 0.96
51 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
TCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCAATATGTGTGAA
Found at i:103698534 original size:46 final size:46
Alignment explanation
Indices: 103698482--103698741 Score: 239
Period size: 46 Copynumber: 5.6 Consensus size: 46
103698472 TGATATGTGC
*
103698482 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGCGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGTGAAA
* * * *
103698528 GCCAGTGTAAGACATGTCTGGAACATGTATCGG---CTTTGAAATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTG---TGAAA
* * *
103698574 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGTG--T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAT-TGTGAAA
* * *
103698622 GCTAGTGTAAGACATGTCTGGGACATGCATCGG---CTTTGAGATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT--G-TGAAA
* *
103698668 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATCGTGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGTGAAA
*
103698714 GCTAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
103698742 GCATTGGCTT
Statistics
Matches: 173, Mismatches: 22, Indels: 37
0.75 0.09 0.16
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 5 0.03
44 2 0.01
46 110 0.64
47 16 0.09
48 31 0.18
49 2 0.01
50 2 0.01
52 1 0.01
53 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGTGAAA
Found at i:103698656 original size:94 final size:91
Alignment explanation
Indices: 103698482--103698783 Score: 360
Period size: 94 Copynumber: 3.3 Consensus size: 91
103698472 TGATATGTGC
* * *
103698482 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGCGAAAGCCAGTGTAAGACATGTCT
1 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCACATTGTG-AAGCTAGTGTAAGACATGTCT
* *
103698547 GGAACATGTATCGGCTTTGAAATGAGA
65 GGGACATGCATCGGCTTTGAAATGAGA
* *
103698574 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGTG-TGCTAGTGTAAGACATG
1 GCCAATGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAT-TGTGAAGCTAGTGTAAGACATG
*
103698638 TCTGGGACATGCATCGGCTTTGAGATGAGA
62 TCTGGGACATGCATCGGCTTTGAAATGAGA
* * *
103698668 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATCGTGAAAGCTAGTGTAAGACCATGTC
1 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCACATTGTG-AAGCTAGTGTAAGA-CATGTC
* * *
103698733 TGGGACATGGCATTGGC-TTGATAT--GT
64 TGGGACAT-GCATCGGCTTTGAAATGAGA
* *
103698759 GTCAATGTAAGACCTGTCTGGGACA
1 GCCAATGTAAGACATGTCTGGGACA
103698784 CGGCATCGAC
Statistics
Matches: 183, Mismatches: 19, Indels: 17
0.84 0.09 0.08
Matches are distributed among these distances:
90 3 0.02
91 26 0.14
92 45 0.25
93 22 0.12
94 81 0.44
95 3 0.02
96 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (91 bp):
GCCAATGTAAGACATGTCTGGGACATGCATCGGCCACATTGTGAAGCTAGTGTAAGACATGTCTG
GGACATGCATCGGCTTTGAAATGAGA
Found at i:103698723 original size:140 final size:136
Alignment explanation
Indices: 103698473--103698783 Score: 326
Period size: 140 Copynumber: 2.2 Consensus size: 136
103698463 CAGTGCATGT
* *
103698473 GATATGTGCGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGCGAAAGCCAGTGTAA
1 GATATGTGTG-CAGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTGAGAAAGCCAGTGTAA
* * *** *
103698538 GACATGTCTGGAACATGTATCGGCTTTGAAATGAGAGCCAATGTAAGA-CATGTCTGGGACAT-G
63 GACATGTCTGGAACATGCATCAGCTCACAAATGAAAGCCAATGTAAGACCATGTCTGGGACATGG
103698601 CATCGGCCTCGA
128 CATCGG-CT--A
*
103698613 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTTTGAGATGAGAGCCAGTGTA
1 GATATGTGTGC-AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGA--A-AGCCAGTGTA
* ** * *
103698677 AGACATGTCTGGGACATGCATCAGC-CACATCGTGAAAGCTAGTGTAAGACCATGTCTGGGACAT
62 AGACATGTCTGGAACATGCATCAGCTCACA-AATGAAAGCCAATGTAAGACCATGTCTGGGACAT
* *
103698741 GGCATTGGCTT
126 GGCATCGGCTA
* *
103698752 GATATGTGT-CAATGTAAGACCTGTCTGGGACA
1 GATATGTGTGCAGTGTAAGACATGTCTGGGACA
103698784 CGGCATCGAC
Statistics
Matches: 146, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
137 26 0.18
138 1 0.01
139 12 0.08
140 85 0.58
141 16 0.11
142 6 0.04
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (136 bp):
GATATGTGTGCAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGAAAGCCAGTGTAAGAC
ATGTCTGGAACATGCATCAGCTCACAAATGAAAGCCAATGTAAGACCATGTCTGGGACATGGCAT
CGGCTA
Found at i:103703950 original size:2 final size:2
Alignment explanation
Indices: 103703914--103703939 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
103703904 GATGAACTAA
103703914 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
103703940 TCGACTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103705425 original size:40 final size:40
Alignment explanation
Indices: 103705241--103705426 Score: 259
Period size: 40 Copynumber: 4.7 Consensus size: 40
103705231 TCGATATATT
* * *
103705241 ATGTATATCCGGGTCAAATCCCACAGGCTTCGTGCTAGTA
1 ATGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* *
103705281 ATGTATATCCGGGTCAAATCCCGCAGGCTTCGTACTGGTA
1 ATGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
*
103705321 ATGTATATCCGGGTTAAATTCCGCAGGCTTCGTGCTGGTA
1 ATGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* *
103705361 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-
1 ATGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
*
103705400 AT-TATATCCGGGCTTAAAGTTCCGCAG
1 ATGTATATCCGGG-TTAAA-TCCCGCAG
103705427 ACTTTGAGCT
Statistics
Matches: 134, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
38 10 0.07
39 7 0.05
40 117 0.87
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (40 bp):
ATGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
Found at i:103726458 original size:42 final size:42
Alignment explanation
Indices: 103726395--103726480 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 42
103726385 ATTAGGAAGA
* *
103726395 AGCAGGCTTTGAGTAGATGTATTTGTAAT-AGGCCTTGGGCTT
1 AGCAGGCTTTGACTAGATGTATTTGT-ATCAAGCCTTGGGCTT
*
103726437 AGCAGGCTTTGAACT-GGTGTATTTGTATCAAGCCTTGGGCTT
1 AGCAGGCTTTG-ACTAGATGTATTTGTATCAAGCCTTGGGCTT
103726479 AG
1 AG
103726481 TAAGTTTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
41 2 0.05
42 35 0.90
43 2 0.05
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (42 bp):
AGCAGGCTTTGACTAGATGTATTTGTATCAAGCCTTGGGCTT
Found at i:103726490 original size:42 final size:40
Alignment explanation
Indices: 103726412--103726497 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 40
103726402 TTTGAGTAGA
* *
103726412 TGTATTTGTAATAGGCCTTGGGCTTAGCAGGCTTTGAACTGG
1 TGTATTTGTAATAAGCCTTGGGCTTAGCAAGCTTTG-A-TGG
* *
103726454 TGTATTTGT-ATCAAGCCTTGGGCTTAGTAAGTTTTGATGG
1 TGTATTTGTAAT-AAGCCTTGGGCTTAGCAAGCTTTGATGG
103726494 TGTA
1 TGTA
103726498 AATGTTATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 7 0.18
41 3 0.08
42 29 0.74
ACGTcount: A:0.20, C:0.12, G:0.29, T:0.40
Consensus pattern (40 bp):
TGTATTTGTAATAAGCCTTGGGCTTAGCAAGCTTTGATGG
Found at i:103727917 original size:59 final size:61
Alignment explanation
Indices: 103727847--103727977 Score: 137
Period size: 60 Copynumber: 2.2 Consensus size: 61
103727837 TTAAGAATGC
* * *
103727847 CTTTGTTGCAAATCTCTA-AAC-AGAAAA-ACCTTTGTGGCGAGTACTAGATGTAA-AGGATG-
1 CTTTGTGGCAAAACTC-AGAACAAGAAAAGA-CTTTATGGCGAGTACTAGATGTAACA-GATGT
* * * *
103727906 CTTTGTGGCAAAACTCAGGACAAGAAAAGACTTTATGGTGAGTGCTGGATGTAACAGATGT
1 CTTTGTGGCAAAACTCAGAACAAGAAAAGACTTTATGGCGAGTACTAGATGTAACAGATGT
103727967 CTTTGTGGCAA
1 CTTTGTGGCAA
103727978 CCTTTGTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
58 1 0.02
59 16 0.27
60 30 0.50
61 13 0.22
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (61 bp):
CTTTGTGGCAAAACTCAGAACAAGAAAAGACTTTATGGCGAGTACTAGATGTAACAGATGT
Found at i:103731713 original size:2 final size:2
Alignment explanation
Indices: 103731702--103731734 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
103731692 AAGTGTATTC
103731702 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
103731735 GACTTGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:103732889 original size:22 final size:24
Alignment explanation
Indices: 103732847--103732899 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
103732837 ATTTTATTAT
*
103732847 TTAATATGAATATATATTTTAAGAA
1 TTAATATGAATATATAATTTAA-AA
103732872 -TAATAT-AA-ATATAATTTAAAA
1 TTAATATGAATATATAATTTAAAA
103732893 TTAATAT
1 TTAATAT
103732900 TGTATGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 16 0.62
23 2 0.08
24 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAATATGAATATATAATTTAAAA
Found at i:103732988 original size:24 final size:28
Alignment explanation
Indices: 103732956--103733018 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
103732946 TTAATTTATG
103732956 TTTT-ATTGTTT-AT-TCT-AA-AAATA
1 TTTTAATTGTTTAATATCTAAACAAATA
*
103732979 TTTTAATTGTTTAATATTTAAACAAATA
1 TTTTAATTGTTTAATATCTAAACAAATA
*
103733007 TTTTAATGGTTT
1 TTTTAATTGTTT
103733019 TTTTCTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 4 0.12
24 7 0.21
25 2 0.06
26 2 0.06
27 2 0.06
28 16 0.48
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (28 bp):
TTTTAATTGTTTAATATCTAAACAAATA
Found at i:103745905 original size:44 final size:41
Alignment explanation
Indices: 103745840--103745998 Score: 164
Period size: 42 Copynumber: 3.8 Consensus size: 41
103745830 ATATGTGTTA
103745840 TCGTGTAAGACCACGTT-TGGGACGTTGGCATCGACTTATGATTT
1 TCGTGTAAGACCAC-TTCTGGGACGTTGGCATCGA-TT-TGA-TT
*
103745884 TTGTGTAAGACCACTTCTGGGACGTTGGCATCGTATTTGATT
1 TCGTGTAAGACCACTTCTGGGACGTTGGCATCG-ATTTGATT
*
103745926 TCGTGTAAGA-CTCTATCTGGGACAG-TGGCATCGATATTTGATT
1 TCGTGTAAGACCACT-TCTGGGAC-GTTGGCATCG--ATTTGATT
* * *
103745969 ACATGTAAGACCACGTCT-GGACGTTGGCAT
1 TCGTGTAAGACCACTTCTGGGACGTTGGCAT
103745999 TGTATGAGCT
Statistics
Matches: 101, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
41 4 0.04
42 37 0.37
43 26 0.26
44 33 0.33
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (41 bp):
TCGTGTAAGACCACTTCTGGGACGTTGGCATCGATTTGATT
Found at i:103747231 original size:19 final size:20
Alignment explanation
Indices: 103747195--103747237 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
103747185 CCTCTCTAAC
*
103747195 TTTGAAAATTTATTTATGT-
1 TTTGAAAATTTATGTATGTG
103747214 TTTGAAAAATTT-TGTATGTG
1 TTTG-AAAATTTATGTATGTG
103747234 TTTG
1 TTTG
103747238 GTTTGGTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (20 bp):
TTTGAAAATTTATGTATGTG
Found at i:103747324 original size:19 final size:19
Alignment explanation
Indices: 103747300--103747338 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
103747290 AAGGGACTCT
103747300 ATTAT-GATGTATGATTATG
1 ATTATGGATG-ATGATTATG
*
103747319 ATTATGGATGATGTTTATG
1 ATTATGGATGATGATTATG
103747338 A
1 A
103747339 ATTGTTCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (19 bp):
ATTATGGATGATGATTATG
Found at i:103753489 original size:43 final size:42
Alignment explanation
Indices: 103753407--103753562 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 42
103753397 TGTGTTATCA
103753407 TGTAA-ACCACGTCTGGGATGTTGGCATCG-ACTTATGATTTACG
1 TGTAAGACCACGTCTGGGATGTTGGCATCGTA-TT-TGATTT-CG
*
103753450 TGTAAGACCACGTCTAGGATGTTGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGATGTTGGCATCGTATTTGATTTCG
* * * *
103753492 TGTAAGACC-CTTTCTGGGACAG-TGGCATCGATATTTGATTGCA
1 TGTAAGACCAC-GTCTGGGA-TGTTGGCATCG-TATTTGATTTCG
*
103753535 TGTAAGACCACTTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
103753563 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.26
43 45 0.45
44 26 0.26
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGTATTTGATTTCG
Found at i:103757197 original size:21 final size:19
Alignment explanation
Indices: 103757159--103757197 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
103757149 ACCAATCATA
*
103757159 TAAGTTTGATATAACTTAG
1 TAAGTTTGATACAACTTAG
103757178 TAAGTTTGATGAGCAACTTA
1 TAAGTTTGAT-A-CAACTTA
103757198 ATGATCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 1 0.06
21 6 0.35
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (19 bp):
TAAGTTTGATACAACTTAG
Found at i:103757390 original size:38 final size:37
Alignment explanation
Indices: 103757278--103757413 Score: 119
Period size: 38 Copynumber: 3.6 Consensus size: 37
103757268 GCACGAAGCA
* * *
103757278 TGCTAGGCACATAGCCCGATAACACTGGCGTGAAGGGT
1 TGCTAGGCACATAGCCCGATAACAC-CGCATGAAGGCT
** * **
103757316 TGCTAGGCACATAGCTTGACAACACCGACACAAAGGCT
1 TGCTAGGCACATAGCCCGATAACACCG-CATGAAGGCT
* * * *
103757354 TGTTAGGCATATAGCCTGATAACACCAGCATGAAGGCC
1 TGCTAGGCACATAGCCCGATAACACC-GCATGAAGGCT
* *
103757392 TACTAGGCATATAGCCCGATAA
1 TGCTAGGCACATAGCCCGATAA
103757414 TACCTTATAT
Statistics
Matches: 78, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
37 1 0.01
38 76 0.97
39 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (37 bp):
TGCTAGGCACATAGCCCGATAACACCGCATGAAGGCT
Found at i:103763135 original size:10 final size:10
Alignment explanation
Indices: 103763120--103763162 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
103763110 GAACATGTTG
103763120 AATTTTAATT
1 AATTTTAATT
*
103763130 AATTTTATATCA
1 AATTTTA-AT-T
*
103763142 AATTTTGATT
1 AATTTTAATT
103763152 AATTTTAATT
1 AATTTTAATT
103763162 A
1 A
103763163 TTACAGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
10 17 0.63
11 4 0.15
12 6 0.22
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (10 bp):
AATTTTAATT
Found at i:103775687 original size:81 final size:81
Alignment explanation
Indices: 103775593--103775742 Score: 230
Period size: 81 Copynumber: 1.9 Consensus size: 81
103775583 AAGTACTCCC
* *
103775593 GATTTACATAATTA-TCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAGA
1 GATTTACAGAATTACT-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAA
103775657 ATTACCATTTTACCCTG
65 ATTACCATTTTACCCTG
* * * *
103775674 GATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
1 GATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAA
103775739 TTAC
66 TTAC
103775743 TAAAATACCA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
81 61 0.98
82 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (81 bp):
GATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAA
TTACCATTTTACCCTG
Found at i:103775743 original size:27 final size:27
Alignment explanation
Indices: 103775592--103775743 Score: 207
Period size: 27 Copynumber: 5.6 Consensus size: 27
103775582 AAAGTACTCC
*
103775592 CGATTTACATAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
*
103775619 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* **
103775646 CAATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
103775673 GGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
103775700 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
103775727 CGATTTACAAAATTACT
1 CGATTTACAGAATTACT
103775744 AAAATACCAT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:103775751 original size:27 final size:27
Alignment explanation
Indices: 103775694--103775751 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
103775684 ATTACTGTTT
* * ****
103775694 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
103775721 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
103775748 TACC
1 TACC
103775752 ATTGGTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:103775769 original size:81 final size:81
Alignment explanation
Indices: 103775574--103775751 Score: 216
Period size: 81 Copynumber: 2.2 Consensus size: 81
103775564 TCGACTTGTG
* * * *
103775574 AAATTACCAAAGTACTCC-CGATTTACATAATTA-TCGTTTTACCCTCGATTTACAGAATTACCG
1 AAATTACCAAAATAC-CCTGGATTTATAGAATTACT-GTTTTACCCTCGATTTACAGAATTACCG
103775637 TTTTACCCTCAATTTACA
64 TTTTACCCTCAATTTACA
* *** * *
103775655 GAATTACCATTTTACCCTGGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTT
1 AAATTACCAAAATACCCTGGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTT
*
103775720 TTACCCTCGATTTACA
66 TTACCCTCAATTTACA
*
103775736 AAATTACTAAAATACC
1 AAATTACCAAAATACC
103775752 ATTGGTTTTT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 2 0.03
81 77 0.96
82 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
AAATTACCAAAATACCCTGGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTT
TTACCCTCAATTTACA
Found at i:103775779 original size:81 final size:81
Alignment explanation
Indices: 103775613--103775786 Score: 181
Period size: 81 Copynumber: 2.1 Consensus size: 81
103775603 ATTATCGTTT
* ***
103775613 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTGGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACCCTGGATT
* ***
103775678 TATAGAATTACTGTTT
66 TATAGAATTACCGCAA
* * * * *
103775694 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCATTGG-T
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACC-CTGGAT
*
103775758 TT-TTGAAATTACCGCAA
65 TTATAG-AATTACCGCAA
*
103775775 TACCCTCAATTT
1 TACCCTCGATTT
103775787 GTAAAACTAC
Statistics
Matches: 75, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
80 2 0.03
81 70 0.93
82 3 0.04
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACCCTGGATT
TATAGAATTACCGCAA
Found at i:103777015 original size:25 final size:24
Alignment explanation
Indices: 103776982--103777029 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
103776972 TTATAACATG
* * *
103776982 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
103777006 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
103777030 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:103777080 original size:9 final size:9
Alignment explanation
Indices: 103777068--103777124 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
103777058 TTTGATAAAC
103777068 ATGATATGT
1 ATGATATGT
*
103777077 ATGATATGCAC
1 ATGATATG--T
*
103777088 ATGACATGT
1 ATGATATGT
*
103777097 ATGATATGCAC
1 ATGATATG--T
103777108 ATGATATGT
1 ATGATATGT
103777117 ATGATATG
1 ATGATATG
103777125 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:103777091 original size:20 final size:20
Alignment explanation
Indices: 103777066--103777136 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
103777056 ATTTTGATAA
103777066 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
103777086 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
103777106 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
103777126 ACATGAGATGT
1 ACATGATATGT
103777137 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Done.